Comparative Bioinformatics (T-Coffee)
The main focus of the group is the development of novel algorithms for the comparison of multiple biological sequences. Multiple comparisons have the advantage of precisely revealing evolutionary traces, thus allowing the identification of functional constraints imposed on the evolution of biological entities. Most comparisons are currently carried out on the basis of sequence similarity.
Our goal is to extend this scope by allowing comparisons based on any relevant biological signal such as sequence homology, structural similarity, genomic structure, functional similarity and more generally any signal that may be identified within biological sequences.
Using such heterogeneous signals serves two complementary purposes:
- producing better models that take advantage of the signal evolutionary resilience,
- improving our understanding of the evolutionary processes that lead to the diversification of biological functions.
All the applications related to our work are provided to the community through an international network of web servers that can be accessed from http://www.tcoffee.org
Main projects
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1.
Development of multiple sequence alignment tools for RNA/Proteins and DNA
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2.
Development of tools for structure based protein classification
Institutions
Bioinformatics expertise:
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Algorithmics (26)
- AIZON (Aizon)
- Algorithms, Computational Biology, Complexity and Formal Methods (UPC)
- Amalfi Analytics (Amalfi)
- Artificial Intelligence Research Institute (CSIC)
- Biomedical Signal Processing and Interpretation (IBEC)
- Chemometrics for Environmental Omics (CSIC)
- Comparative Bioinformatics (CRG)
- Computational & Mathematical Biology (CRM)
- Computational Biology and Complex Systems Group (UPC)
- Computational continuum mechanics (UPC)
- Computational RNA Biology group of GRIB (UPF, IMIM)
- Computational Science group of GRIB (UPF, IMIM)
- Computer Vision and Robotics Group (UdG)
- Control Engineering and Intelligent Systems (UdG)
- Data and Signal Processing Research Group (UVic-UCC)
- Distributed Computation Group (UdL)
- High Performance Computing Applications for Science and Engineering - Bioinformatics (UAB)
- IN2 Ingeniería de la Información (IN2)
- Internet Computing & Systems Optimization (FUOC)
- Laboratory of Relational Algorithmics, Complexity and Learnability (UPC)
- Laboratory of Systems Pharmacology and Bioinformatics (UAB)
- Modelling, Identification and Control Engineering (UdG)
- Numerical Genomics - Statistical and population genomics (CRAG)
- Research Group on Statistics, Econometrics and Health (UdG)
- Signal and Information Processing for Sensing Systems (IBEC)
- Soft Computing (UPC)
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Comparative Genomics (21)
- Bioinformatics of Genome Diversity (UAB)
- Cancer genetics and epigenetics (IGTP)
- Cancer Genomics Group (VHIO)
- Centre Nacional d'Anàlisi Genòmica CNAG-CRG (CRG)
- Comparative and Functional Genomics Group (UAB)
- Comparative Bioinformatics (CRG)
- Comparative Genomics (UPF, CSIC)
- Comparative Genomics (CRG)
- Evolutionary and Functional Genomics Lab (UPF, CSIC)
- Evolutionary Genomics & Bioinformatics (UB)
- Evolutionary Genomics group of GRIB (UPF, IMIM)
- Evolutionary Population Genetics Lab (UPF, CSIC)
- Genetics and Genomics of Vegetable Crops and Rosaceae (CRAG)
- Genomics of Individuality (UPF, CSIC)
- Laboratory of Genetic Ichthyology (UdG)
- Laboratory of Relational Algorithmics, Complexity and Learnability (UPC)
- Mathematical Modeling of Metabolic Processes (UdL)
- Multicellgenome Lab (UPF, UB, CSIC)
- Regulatory Genomics (IGTP)
- Roche Diagnostics (Roche)
- Sequentia Biotech (SeqBio)
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Computational Genomics (39)
- Algorithms, Computational Biology, Complexity and Formal Methods (UPC)
- Bioinformatics of Genome Diversity (UAB)
- Biomedical Genomics (IRB Barcelona)
- Cancer genetics and epigenetics (IGTP)
- Cancer Genomics Group (VHIO)
- Centre Nacional d'Anàlisi Genòmica CNAG-CRG (CRG)
- Clinical Genomics Unit ()
- Comparative Bioinformatics (CRG)
- Comparative Genomics (UPF, CSIC)
- Computational & Mathematical Biology (CRM)
- Computational Biology of RNA processing (CRG)
- Computational Genomics (BSC)
- Computational Genomics Lab @ UB (UB)
- Computational RNA Biology group of GRIB (UPF, IMIM)
- Epigenetics of Endocrine Pancreatic Tumours (IGTP)
- Evolutionary and Functional Genomics Lab (UPF, CSIC)
- Evolutionary Genomics & Bioinformatics (UB)
- Evolutionary Genomics group of GRIB (UPF, IMIM)
- Evolutionary Genomics Lab (UPF, CSIC)
- Evolutionary Population Genetics Lab (UPF, CSIC)
- Evolutionary Systems Biology (UPF, CSIC)
- Gene Function and Evolution lab (CRG)
- Genome Data Science (IRB Barcelona)
- Genomic and Epigenomic Variation in Disease (CRG)
- Genomics and Bioinformatics Service (UAB)
- Genomics and Disease (CRG)
- Genomics of Individuality (UPF, CSIC)
- High Content Genomics and Bioinformatics (IGTP)
- Human Genome Diversity Group (UPF, CSIC)
- Information Modeling and Processing (UPC)
- Laboratory of Genetic Ichthyology (UdG)
- Made of Genes (MoG)
- Mathematical Modeling of Metabolic Processes (UdL)
- Molecular Modelling and Bioinformatics (UB, IRB Barcelona)
- Oncology Data Science Group (VHIO)
- Regulatory Genomics (IGTP)
- Sequentia Biotech (SeqBio)
- The CRG Bioinformatics Unit (CRG)
- Translational & Consumer Genomics Unit ()
Bioinformatics services offered
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T-Coffee multiple Sequence alignment, a suite of online servers for the computation of RNA, Protein and DNA multiple sequence alignments
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Nextflow scripting language, a framework for the rapid and efficient parallelisation of bioinformatics and genomics high-throughput pipelines